Global Associations between Copy Number and Transcript mRNA Microarray Data: An Empirical Study | Zendy

Wenjuan Gu | Zendy; Hyungwon Choi | Zendy; Debashis Ghosh | Zendy

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Global Associations between Copy Number and Transcript mRNA Microarray Data: An Empirical Study

Author(s) -

Wenjuan Gu,

Hyungwon Choi,

Debashis Ghosh

Publication year - 2008

Publication title -

cancer informatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.606

H-Index - 31

ISSN - 1176-9351

DOI - 10.4137/cin.s342

Subject(s) - copy number variation , gene dosage , copy number analysis , computational biology , biology , gene expression profiling , comparative genomic hybridization , gene expression , dna microarray , genomics , microarray , gene , genetics , microarray analysis techniques , correlation , bioinformatics , genome , mathematics , geometry

With an increasing number of cancer profiling studies assaying both transcript mRNA and copy number expression levels, a natural question then involves the potential to combine information across the two types of genomic data. In this article, we perform a study to assess the nature of association between the two types of data across several experiments. We report on several interesting findings: 1) global correlation between gene expression and copy number is relatively weak but consistent across studies; 2) there is strong evidence for a cis-dosage effect of copy number on gene expression; 3) segmenting the copy number levels helps to improve correlations.

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